# HG changeset patch
# User galaxyp
# Date 1540466478 14400
# Node ID 45fb4dd8400b76d07ecd418c8b0b1885d5a02288
# Parent de334e98f1c1f3e0752ac036e037d923eb7de562
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/cardinal commit d2f311f7fff24e54c565127c40414de708e31b3c
diff -r de334e98f1c1 -r 45fb4dd8400b macros.xml
--- a/macros.xml Mon Oct 01 01:01:41 2018 -0400
+++ b/macros.xml Thu Oct 25 07:21:18 2018 -0400
@@ -4,10 +4,17 @@
bioconductor-cardinal
+ r-base
+
+ /dev/null | grep -v -i "WARNING: ")
+ ]]>
+
+
-
+
+
@@ -198,12 +206,12 @@
-
-
+
-
-
-
+
+
+
diff -r de334e98f1c1 -r 45fb4dd8400b spectra_plots.xml
--- a/spectra_plots.xml Mon Oct 01 01:01:41 2018 -0400
+++ b/spectra_plots.xml Thu Oct 25 07:21:18 2018 -0400
@@ -1,4 +1,4 @@
-
+
mass spectrometry imaging mass spectra plots
@@ -6,9 +6,9 @@
macros.xml
- r-gridextra
- r-ggplot2
- r-scales
+ r-ggplot2
+ r-gridextra
+ r-scales
0){
@@ -88,7 +95,6 @@
##################### IV) plot zoom-in mass spectrum ###############
#if $chosenpixel.zoomedplot:
- iData(msidata) <- iData(msidata)[] ## getting back data on disk
#for $token in $chosenpixel.zoomedplot:
@@ -253,6 +259,8 @@
print("Inputfile has no intensities > 0")
dev.off()
}
+
+
]]>
diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Heatmaps_LM8_file16.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Heatmaps_imzml.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Heatmaps_rdata.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_analyze75.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_analyze75_allpixels.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_empty_spectra.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_imzml.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/Plot_rdata.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/QC_analyze75.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/QC_empty_spectra.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/QC_imzml.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/QC_rdata.pdf
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diff -r de334e98f1c1 -r 45fb4dd8400b test-data/analyze75.svg
--- a/test-data/analyze75.svg Mon Oct 01 01:01:41 2018 -0400
+++ b/test-data/analyze75.svg Thu Oct 25 07:21:18 2018 -0400
@@ -1,15 +1,15 @@
-